error during segmentation

Submitted by soroosh on

Dear Chao Gan,

first of all thank you for providing such a helpful toolbox.

however, during the segmentation an error occurs:

I have also attached an screenshot of the design.

Warning: Matrix is singular, close to singular or badly scaled. Results may be
inaccurate. RCOND = NaN. 
> In expm>PadeApproximantOfDegree at 123
  In expm at 39
  In spm_maff>P2M at 197
  In spm_maff>affreg at 154
  In spm_maff at 27
  In spm_preproc at 154
  In spm_run_preproc at 20
  In matlabbatch\private\cfg_run_cm at 29
  In cfg_util>local_runcj at 1688
  In cfg_util at 959
  In spm_jobman>fill_run_job at 471
  In spm_jobman at 246
  In DPARSFA_run>(parfor body) at 1964
  In parallel_function at 467
  In DPARSFA_run at 1927
  In DPARSFA>pushbuttonRun_Callback at 1761
  In gui_mainfcn at 96
  In DPARSFA at 30 
Failed  'Old Segment'
Error using schur
Input to SCHUR must not contain NaN or Inf.
In file "C:\Program Files\MATLAB\R2013a\toolbox\matlab\matfun\sqrtm.m" (???), function "sqrtm" at line 33.
In file "E:\spm12\toolbox\OldSeg\spm_maff.m" (v4873), function "M2P" at line 162.
In file "E:\spm12\toolbox\OldSeg\spm_maff.m" (v4873), function "affreg" at line 78.
In file "E:\spm12\toolbox\OldSeg\spm_maff.m" (v4873), function "spm_maff" at line 27.
In file "E:\spm12\spm_preproc.m" (v4916), function "spm_preproc" at line 155.
In file "E:\spm12\toolbox\OldSeg\spm_run_preproc.m" (v4873), function "spm_run_preproc" at line 20.
 
The following modules did not run:
Failed: Old Segment
 
Error using MATLABbatch system
Job execution failed. The full log of this run can be found in MATLAB command window,
starting with the lines (look for the line showing the exact #job as displayed in this
error message)
------------------
Running job #1
------------------
 
 
Caused by:
    Error using MATLABbatch system
    Job execution failed. The full log of this run can be found in MATLAB command
    window, starting with the lines (look for the line showing the exact #job as
    displayed in this error message)
    ------------------
    Running job #1
    ------------------
 
 
Error while evaluating uicontrol Callback

I think this error may be caused by the installation path of MATLAB,  "C:\Program Files\MATLAB\R2013a\toolbox", it should not have blank space in 'Program Files'.  My advice may be wrong, I am new to fMRI, please understand.




At 2016-04-13 22:12:02, "The R-fMRI Network" <rfmri.org@gmail.com> wrote:
[To post a comment, please reply to rfmri.org@gmail.com ABOVE this line]

By soroosh (soroosh)

Dear Chao Gan,

first of all thank you for providing such a helpful toolbox.

however, during the segmentation an error occurs:

I have also attached an screenshot of the design.

 


Online version of this post: http://rfmri.org/content/error-during-segmentation


YAN Chao-Gan

Fri, 04/15/2016 - 02:24

Permalink

Hi,

Seems there is NaN in you T1 image.

Please check your T1 images. Or:

[Data Head]=y_Read('XXT1.nii');

Data(find(isnan(Data)))=0;

y_Write(Data,Head,'XXT1New.nii');

Best,

Chao0-Gan

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